Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD1000c_(-)_1116535_1117152
DateWed Jul 31 22:05:07 BST 2019
Unique Job IDcbee898b6feb6c9c
SequenceMCDKLGGVAI ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:48.008 Y:44.209 Z:43.175
Model (left) based on template c3btzA_
Top template information
PDB header:oxidoreductase/dna
Chain: A: PDB Molecule:alpha-ketoglutarate-dependent dioxygenase alkb homolog 2;
PDBTitle: crystal structure of human abh2 cross-linked to dsdna
Confidence and coverage
Confidence:100.0% Coverage: 88%
181 residues ( 88% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
3D viewing
Interactive 3D view in JSmol
For other options to view your downloaded structure offline see the FAQ

Sequence analysis 

Download FASTA version

Secondary structure and disorder prediction [Show] 

Domain analysis [Show] 

Detailed template information [Hide] 

 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3btzA_
100.0 27
PDB header:oxidoreductase/dna
Chain: A: PDB Molecule:alpha-ketoglutarate-dependent dioxygenase alkb homolog 2;
PDBTitle: crystal structure of human abh2 cross-linked to dsdna
2c2iuwA_
100.0 30
PDB header:oxidoreductase
Chain: A: PDB Molecule:alkylated repair protein alkb homolog 3;
PDBTitle: crystal structure of human abh3 in complex with iron ion and 2-2 oxoglutarate
3d2iuwa1
100.0 30
Fold:Double-stranded beta-helix
Superfamily:Clavaminate synthase-like
Family:AlkB-like
4d2fdia1
100.0 23
Fold:Double-stranded beta-helix
Superfamily:Clavaminate synthase-like
Family:AlkB-like
5c4qkbA_
100.0 20
PDB header:oxidoreductase
Chain: A: PDB Molecule:alpha-ketoglutarate-dependent dioxygenase alkb homolog 7,
PDBTitle: crystal structure of seleno-methionine labelled human alkbh7 in2 complex with alpha-ketoglutarate and mn(ii)
6c3thtB_
100.0 22
PDB header:oxidoreductase
Chain: B: PDB Molecule:alkylated dna repair protein alkb homolog 8;
PDBTitle: crystal structure and rna binding properties of the rrm/alkb domains2 in human abh8, an enzyme catalyzing trna hypermodification, northeast3 structural genomics consortium target hr5601b
7c5ylbA_
100.0 19
PDB header:oxidoreductase
Chain: A: PDB Molecule:uncharacterized protein p8a3.02c;
PDBTitle: crystal structure of ofd2 from schizosaccharomyces pombe at 1.80 a
8c5xoiA_
100.0 18
PDB header:oxidoreductase
Chain: A: PDB Molecule:oxidoreductase, 2og-fe oxygenase family protein, putative,
PDBTitle: the structure of osalkbh1
9c4nj4A_
100.0 23
PDB header:oxidoreductase/oxidoreductase inhibitor
Chain: A: PDB Molecule:rna demethylase alkbh5;
PDBTitle: crystal structure of human alkbh5
10c3lfmA_
99.1 24
PDB header:oxidoreductase
Chain: A: PDB Molecule:protein fto;
PDBTitle: crystal structure of the fat mass and obesity associated (fto) protein2 reveals basis for its substrate specificity
11c3dkqB_
97.8 16
PDB header:oxidoreductase
Chain: B: PDB Molecule:pkhd-type hydroxylase sbal_3634;
PDBTitle: crystal structure of putative oxygenase (yp_001051978.1) from2 shewanella baltica os155 at 2.26 a resolution
12c2g19A_
97.7 17
PDB header:oxidoreductase
Chain: A: PDB Molecule:egl nine homolog 1;
PDBTitle: cellular oxygen sensing: crystal structure of hypoxia-inducible factor2 prolyl hydroxylase (phd2)
13c3ouiA_
97.5 17
PDB header:oxidoreductase
Chain: A: PDB Molecule:egl nine homolog 1;
PDBTitle: phd2-r717 with 40787422
14c4iw3J_
97.0 12
PDB header:metal binding protein/translation
Chain: J: PDB Molecule:putative uncharacterized protein;
PDBTitle: crystal structure of a pseudomonas putida prolyl-4-hydroxylase (p4h)2 in complex with elongation factor tu (ef-tu)
15c6f0wA_
96.9 18
PDB header:oxidoreductase
Chain: A: PDB Molecule:hif prolyl hydroxylase;
PDBTitle: prolyl hydroxylase in complex with hypoxia inducible factor oxygen2 degradation domain peptide fragment from trichoplax adhaerens
16c6n1fD_
96.2 19
PDB header:oxidoreductase
Chain: D: PDB Molecule:oxidoreductase, 2og-fe(ii) oxygenase family;
PDBTitle: crystal structure of oxidoreductase, 2og-fe(ii) oxygenase family, from2 burkholderia pseudomallei
17c4zonB_
95.8 17
PDB header:oxidoreductase/oxidoreductase inhibitor
Chain: B: PDB Molecule:verruculogen synthase;
PDBTitle: structure of ftmox1 with fumitremorgen b complex
18c3gjbA_
95.6 18
PDB header:biosynthetic protein
Chain: A: PDB Molecule:cytc3;
PDBTitle: cytc3 with fe(ii) and alpha-ketoglutarate
19c5c3qB_
95.5 20
PDB header:oxidoreductase
Chain: B: PDB Molecule:thymine dioxygenase;
PDBTitle: crystal structure of the full-length neurospora crassa t7h in complex2 with alpha-kg and thymine (t)
20c4diqA_
95.5 20
PDB header:oxidoreductase
Chain: A: PDB Molecule:lysine-specific demethylase no66;
PDBTitle: crystal structure of human no66
21c5m0tA_
not modelled 94.8 20
PDB header:oxidoreductase
Chain: A: PDB Molecule:alpha-ketoglutarate-dependent non-heme iron oxygenase eash;
PDBTitle: alpha-ketoglutarate-dependent non-heme iron oxygenase eash
22c4nubA_
not modelled 94.7 19
PDB header:oxidoreductase
Chain: A: PDB Molecule:50s ribosomal protein l16 arginine hydroxylase;
PDBTitle: crystal structure of escherichia coli ribosomal oxygenase ycfd
23c2jijA_
not modelled 94.7 16
PDB header:hydrolase
Chain: A: PDB Molecule:prolyl-4 hydroxylase;
PDBTitle: crystal structure of the apo form of chlamydomonas2 reinhardtii prolyl-4 hydroxylase type i
24c4cswA_
not modelled 94.6 18
PDB header:oxidoreductase
Chain: A: PDB Molecule:cupin 4 family protein;
PDBTitle: rhodothermus marinus ycfd-like ribosomal protein l16 arginyl2 hydroxylase
25c5yboA_
not modelled 94.5 21
PDB header:oxidoreductase
Chain: A: PDB Molecule:prha;
PDBTitle: fe(ii)/(alpha)ketoglutarate-dependent dioxygenase prha in complex with2 preaustinoid a1
26c2xdvA_
not modelled 94.5 26
PDB header:nuclear protein
Chain: A: PDB Molecule:myc-induced nuclear antigen;
PDBTitle: crystal structure of the catalytic domain of flj14393
27c4nhyC_
not modelled 94.5 17
PDB header:oxidoreductase/oxidoreductase inhibitor
Chain: C: PDB Molecule:2-oxoglutarate and iron-dependent oxygenase domain-
PDBTitle: crystal structure of human ogfod1, 2-oxoglutarate and iron-dependent2 oxygenase domain containing 1, in complex with pyridine-2,4-3 dicarboxylic acid (2,4-pdca)
28c3on7C_
not modelled 94.5 22
PDB header:oxidoreductase
Chain: C: PDB Molecule:oxidoreductase, iron/ascorbate family;
PDBTitle: crystal structure of a putative oxygenase (so_2589) from shewanella2 oneidensis at 2.20 a resolution
29c5daqA_
not modelled 94.3 17
PDB header:oxidoreductase
Chain: A: PDB Molecule:phytanoyl-coa dioxygenase family protein (afu_orthologue
PDBTitle: fe(ii)/(alpha)ketoglutarate-dependent dioxygenase asqj in complex with2 4-methoxycyclopeptin
30c5epaE_
not modelled 94.2 17
PDB header:lyase
Chain: E: PDB Molecule:snok;
PDBTitle: crystal structure of non-heme alpha ketoglutarate dependent2 carbocyclase snok from nogalamycin biosynthesis
31c4xaaA_
not modelled 94.1 19
PDB header:oxidoreductase
Chain: A: PDB Molecule:putative oxygenase;
PDBTitle: crystal structure of avio1 from streptomyces viridochromogenes tue57
32c5zm4B_
not modelled 94.1 15
PDB header:oxidoreductase
Chain: B: PDB Molecule:dioxygenase anda;
PDBTitle: fe(ii)/(alpha)ketoglutarate-dependent dioxygenase anda with2 preandiloid c
33c2opwA_
not modelled 93.9 17
PDB header:oxidoreductase
Chain: A: PDB Molecule:phyhd1 protein;
PDBTitle: crystal structure of human phytanoyl-coa dioxygenase phyhd1 (apo)
34c3ooxA_
not modelled 93.6 24
PDB header:oxidoreductase
Chain: A: PDB Molecule:putative 2og-fe(ii) oxygenase family protein;
PDBTitle: crystal structure of a putative 2og-fe(ii) oxygenase family protein2 (cc_0200) from caulobacter crescentus at 1.44 a resolution
35c6jyvA_
not modelled 93.2 18
PDB header:metal binding protein
Chain: A: PDB Molecule:probable iron/ascorbate oxidoreductase;
PDBTitle: structure of an isopenicillin n synthase from pseudomonas aeruginosa2 pao1
36d1w9ya1
not modelled 93.1 22
Fold:Double-stranded beta-helix
Superfamily:Clavaminate synthase-like
Family:Penicillin synthase-like
37c3itqB_
not modelled 93.0 13
PDB header:oxidoreductase
Chain: B: PDB Molecule:prolyl 4-hydroxylase, alpha subunit domain protein;
PDBTitle: crystal structure of a prolyl 4-hydroxylase from bacillus anthracis
38c4naoA_
not modelled 92.9 16
PDB header:oxidoreductase
Chain: A: PDB Molecule:putative oxygenase;
PDBTitle: crystal structure of eash
39c5gj9A_
not modelled 92.4 21
PDB header:oxidoreductase
Chain: A: PDB Molecule:1-aminocyclopropane-1-carboxylate oxidase 2;
PDBTitle: crystal structure of arabidopsis thaliana aco2 in complex with poa
40c5o7yA_
not modelled 92.4 19
PDB header:oxidoreductase
Chain: A: PDB Molecule:thebaine 6-o-demethylase;
PDBTitle: thebaine 6-o-demethylase (t6odm) from papaver somniferum in complex2 with succinate
41d1gp6a_
not modelled 91.2 14
Fold:Double-stranded beta-helix
Superfamily:Clavaminate synthase-like
Family:Penicillin synthase-like
42c4xaeB_
not modelled 89.4 24
PDB header:oxidoreductase
Chain: B: PDB Molecule:feruloyl coa ortho-hydroxylase 1;
PDBTitle: structure of feruloyl-coa 6-hydroxylase (f6h) from arabidopsis2 thaliana
43c4lt5A_
not modelled 87.3 23
PDB header:oxidoreductase/dna
Chain: A: PDB Molecule:naegleria tet-like dioxygenase;
PDBTitle: structure of a naegleria tet-like dioxygenase in complex with 5-2 methylcytosine dna
44c5c5tB_
not modelled 86.7 17
PDB header:oxidoreductase
Chain: B: PDB Molecule:prolyl 4-hydroxylase;
PDBTitle: the crystal structure of viral collagen prolyl hydroxylase vcph from2 paramecium bursaria chlorella virus-1 - 2og complex
45c3kt4A_
not modelled 86.5 19
PDB header:oxidoreductase
Chain: A: PDB Molecule:pkhd-type hydroxylase tpa1;
PDBTitle: crystal structure of tpa1 from saccharomyces cerevisiae, a component2 of the messenger ribonucleoprotein complex
46c6ax6B_
not modelled 85.5 17
PDB header:oxidoreductase
Chain: B: PDB Molecule:procollagen lysyl hydroxylase and glycosyltransferase;
PDBTitle: the crystal structure of a lysyl hydroxylase from acanthamoeba2 polyphaga mimivirus
47c4xabA_
not modelled 84.6 18
PDB header:oxidoreductase
Chain: A: PDB Molecule:evdo2;
PDBTitle: crystal structure of evdo2 from micromonospora carbonacea var.2 aurantiaca
48c6ec3C_
not modelled 83.8 15
PDB header:transferase, oxidoreductase
Chain: C: PDB Molecule:methyltransferase domain-containing protein;
PDBTitle: crystal structure of evdmo1
49c4nm6A_
not modelled 82.2 14
PDB header:oxidoreductase/dna
Chain: A: PDB Molecule:methylcytosine dioxygenase tet2;
PDBTitle: crystal structure of tet2-dna complex
50c2rdsA_
not modelled 80.9 27
PDB header:oxidoreductase
Chain: A: PDB Molecule:1-deoxypentalenic acid 11-beta hydroxylase; fe(ii)/alpha-
PDBTitle: crystal structure of ptlh with fe/oxalylglycine and ent-1-2 deoxypentalenic acid bound
51c4mhuB_
not modelled 78.9 12
PDB header:oxidoreductase
Chain: B: PDB Molecule:ectoine hydroxylase;
PDBTitle: crystal structure of ectd from s. alaskensis with bound fe
52c3bvcA_
not modelled 78.8 20
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein ism_01780;
PDBTitle: crystal structure of uncharacterized protein ism_01780 from2 roseovarius nubinhibens ism
53d2a1xa1
not modelled 78.0 11
Fold:Double-stranded beta-helix
Superfamily:Clavaminate synthase-like
Family:PhyH-like
54d1vr3a1
not modelled 77.4 22
Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Acireductone dioxygenase
55d2fcta1
not modelled 77.0 14
Fold:Double-stranded beta-helix
Superfamily:Clavaminate synthase-like
Family:PhyH-like
56d1vrba1
not modelled 74.6 15
Fold:Double-stranded beta-helix
Superfamily:Clavaminate synthase-like
Family:Asparaginyl hydroxylase-like
57c5lunC_
not modelled 68.9 16
PDB header:oxidoreductase
Chain: C: PDB Molecule:2-oxoglutarate-dependent ethylene/succinate-forming enzyme;
PDBTitle: ethylene forming enzyme from pseudomonas syringae pv. phaseolicola -2 p1 ultra-high resolution crystal form in complex with iron, n-3 oxalylglycine and arginine
58c6iuqA_
not modelled 67.0 16
PDB header:oxidoreductase
Chain: A: PDB Molecule:prolyl 4-hydroxylase;
PDBTitle: crystal structure and expression patterns of prolyl 4-hydroxylases2 from phytophthora capsici
59c5ncjB_
not modelled 64.4 22
PDB header:oxidoreductase
Chain: B: PDB Molecule:leucine hydroxylase;
PDBTitle: grie in complex with manganese, succinate and (2s,4r)-5-hydroxyleucine
60c5erlD_
not modelled 57.7 29
PDB header:isomerase
Chain: D: PDB Molecule:snon,snon;
PDBTitle: crystal structure of the epimerase snon in complex with ni2+,2 succinate and nogalamycin ro
61c3al6C_
not modelled 54.2 24
PDB header:unknown function
Chain: C: PDB Molecule:jmjc domain-containing protein c2orf60;
PDBTitle: crystal structure of human tyw5
62d1odma_
not modelled 52.5 20
Fold:Double-stranded beta-helix
Superfamily:Clavaminate synthase-like
Family:Penicillin synthase-like
63c4p7xA_
not modelled 51.6 10
PDB header:oxidoreductase
Chain: A: PDB Molecule:l-proline cis-4-hydroxylase;
PDBTitle: l-pipecolic acid-bound l-proline cis-4-hydroxylase
64c3mguA_
not modelled 50.4 21
PDB header:oxidoreductase
Chain: A: PDB Molecule:pkhd-type hydroxylase tpa1;
PDBTitle: structure of s. cerevisiae tpa1 protein, a proline hydroxylase2 modifying ribosomal protein rps23
65c4b6wA_
not modelled 45.7 7
PDB header:chaperone
Chain: A: PDB Molecule:tubulin-specific chaperone;
PDBTitle: architecture of trypanosoma brucei tubulin-binding cofactor b
66c3al6A_
not modelled 42.3 26
PDB header:unknown function
Chain: A: PDB Molecule:jmjc domain-containing protein c2orf60;
PDBTitle: crystal structure of human tyw5
67c2kjrA_
not modelled 42.1 12
PDB header:chaperone
Chain: A: PDB Molecule:cg11242;
PDBTitle: solution nmr structure of the n-terminal ubiquitin-like2 domain from tubulin-binding cofactor b, cg11242, from3 drosophila melanogaster. northeast structural genomics4 consortium target fr629a (residues 8-92)
68d1dcsa_
not modelled 42.1 19
Fold:Double-stranded beta-helix
Superfamily:Clavaminate synthase-like
Family:Penicillin synthase-like
69c3uyjA_
not modelled 32.0 19
PDB header:oxidoreductase
Chain: A: PDB Molecule:lysine-specific demethylase 8;
PDBTitle: crystal structure of jmjd5 catalytic core domain in complex with2 nickle and alpha-kg
70d2bpa1_
not modelled 29.1 40
Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily:ssDNA viruses
Family:Microviridae-like VP
71d1kvpa_
not modelled 28.0 40
Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily:ssDNA viruses
Family:Microviridae-like VP
72c2l05A_
not modelled 25.5 21
PDB header:transferase
Chain: A: PDB Molecule:serine/threonine-protein kinase b-raf;
PDBTitle: solution nmr structure of the ras-binding domain of serine/threonine-2 protein kinase b-raf from homo sapiens, northeast structural genomics3 consortium target hr4694f
73c4xc9B_
not modelled 24.6 18
PDB header:oxidoreductase
Chain: B: PDB Molecule:oxidase/hydroxylase;
PDBTitle: crystal structure of apo hygx from streptomyces hygroscopicus
74c3emrA_
not modelled 22.8 16
PDB header:oxidoreductase
Chain: A: PDB Molecule:ectd;
PDBTitle: crystal structure analysis of the ectoine hydroxylase ectd from2 salibacillus salexigens
75c2kj6A_
not modelled 22.4 17
PDB header:chaperone
Chain: A: PDB Molecule:tubulin folding cofactor b;
PDBTitle: nmr solution structure of a tubulin folding cofactor b2 obtained from arabidopsis thaliana: northeast structural3 genomics consortium target ar3436a
76c4qszB_
not modelled 20.6 18
PDB header:transcription
Chain: B: PDB Molecule:maltose-binding periplasmic protein, jmjc domain-containing
PDBTitle: crystal structure of mouse jmjd7 fused with maltose-binding protein
77d1zvfa1
not modelled 20.1 7
Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:3-hydroxyanthranilic acid dioxygenase-like
78c4xbzB_
not modelled 19.1 18
PDB header:oxidoreductase
Chain: B: PDB Molecule:evdo1;
PDBTitle: crystal structure of evdo1 from micromonospora carbonacea var.2 aurantiaca
79d1miua1
not modelled 18.2 29
Fold:BRCA2 helical domain
Superfamily:BRCA2 helical domain
Family:BRCA2 helical domain
80d1m06f_
not modelled 18.0 47
Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily:ssDNA viruses
Family:Microviridae-like VP
81c4ar0A_
not modelled 14.7 23
PDB header:transport
Chain: A: PDB Molecule:type iv pilus biogenesis and competence protein pilq;
PDBTitle: n0 domain of neisseria meningitidis pilus assembly protein pilq
82d1v6ea_
not modelled 14.1 10
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
83c3rcqA_
not modelled 13.8 11
PDB header:oxidoreductase
Chain: A: PDB Molecule:aspartyl/asparaginyl beta-hydroxylase;
PDBTitle: crystal structure of human aspartate beta-hydroxylase isoform a
84d1gff1_
not modelled 13.7 47
Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily:ssDNA viruses
Family:Microviridae-like VP
85c3k2oB_
not modelled 10.8 18
PDB header:oxidoreductase
Chain: B: PDB Molecule:bifunctional arginine demethylase and lysyl-hydroxylase
PDBTitle: structure of an oxygenase
86d1t0ya_
not modelled 10.6 7
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
87c1t0yA_
not modelled 10.6 7
PDB header:chaperone
Chain: A: PDB Molecule:tubulin folding cofactor b;
PDBTitle: solution structure of a ubiquitin-like domain from tubulin-2 binding cofactor b
88d1ra0a1
not modelled 10.2 23
Fold:Composite domain of metallo-dependent hydrolases
Superfamily:Composite domain of metallo-dependent hydrolases
Family:Cytosine deaminase
89c5jqyA_
not modelled 9.4 15
PDB header:oxidoreductase
Chain: A: PDB Molecule:aspartyl/asparaginyl beta-hydroxylase;
PDBTitle: aspartyl/asparaginyl beta-hydroxylase (asph)oxygenase and tpr domains2 in complex with manganese, n-oxalylglycine and factor x substrate3 peptide fragment(39mer-4ser)
90d1yfua1
not modelled 7.3 15
Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:3-hydroxyanthranilic acid dioxygenase-like
91d2ijra1
not modelled 7.3 25
Fold:Api92-like
Superfamily:Api92-like
Family:Api92-like
92c3dg8B_
not modelled 7.0 24
PDB header:oxidoreductase, transferase
Chain: B: PDB Molecule:bifunctional dihydrofolate reductase-thymidylate synthase;
PDBTitle: quadruple mutant (n51i+c59r+s108n+i164l) plasmodium falciparum2 dihydrofolate reductase-thymidylate synthase (pfdhfr-ts) complexed3 with rjf670, nadph, and dump
93c3pl0B_
not modelled 6.7 27
PDB header:biosynthetic protein
Chain: B: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of a bsma homolog (mpe_a2762) from methylobium2 petroleophilum pm1 at 1.91 a resolution
94d1kxpd3
not modelled 6.6 5
Fold:Serum albumin-like
Superfamily:Serum albumin-like
Family:Serum albumin-like
95d1j3ka_
not modelled 6.4 24
Fold:Dihydrofolate reductase-like
Superfamily:Dihydrofolate reductase-like
Family:Dihydrofolate reductases
96d1iyjb1
not modelled 6.3 24
Fold:BRCA2 helical domain
Superfamily:BRCA2 helical domain
Family:BRCA2 helical domain
97c4khbE_
not modelled 5.9 40
PDB header:transcription/replication
Chain: E: PDB Molecule:uncharacterized protein spt16d;
PDBTitle: structure of the spt16d pob3n heterodimer
98c5c33B_
not modelled 5.8 18
PDB header:contractile protein
Chain: B: PDB Molecule:ryanodine receptor 2;
PDBTitle: crystal structure of mouse ryanodine receptor 2 spry1 domain
99c4idxA_
not modelled 5.8 24
PDB header:dna binding protein
Chain: A: PDB Molecule:nucleocapsid protein;
PDBTitle: hexameric crystal structure of schmallenberg virus nucleoprotein

Binding site prediction 

Due to computational demand, binding site predictions are not run for batch jobs

If you want to predict binding sites, please manually submit your model of choice to 3DLigandSite